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All markers in this database have been identified based on sequences and scaffolds from the JGI Assembly 2.0. These markers will be annotated to the scaffolds from JGI Assembly 4.0 as they are mapped. In this interim, we have established a BLAST search function that will allow you to identify which Assembly 2.0 scaffold contains your sequence of interest. You can then search the marker Database to determine if a polymorphic marker has been identified on the same Assembly 2.0 scaffold as your sequence. First, Blast your sequence against Assembly 2.0 (below) and retrieve the corresponding scaffold number(s). Then click on "Enter Database" link and use the search function (at the bottom right) to enter the Assembly 2.0 scaffold number in the box labeled "Marker ID". It is important to use the 5-digit scaffold number (e.g., for scaffold 125 enter 00125). We are attempting to identify polymorphic markers from each Assembly 2.0 scaffold that includes SSRs. However, please note that approximately 15% of the genome is represented in small scaffolds that do not include SSRs. 
Comments and suggestions to:< blast-help@ncbi.nlm.nih.gov > Last modified: Jan 11, 2002 |